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Data released on May 20, 2016

The data for: Genomic resources and draft reference assemblies of the human and porcine scabies mites, Sarcoptes scabiei var. hominis and var. suis

Currie, B, J; Fischer, K; Holt, D; Mofiz, E; Papenfuss, A, T; Seemann, T (2016): The data for: Genomic resources and draft reference assemblies of the human and porcine scabies mites, Sarcoptes scabiei var. hominis and var. suis GigaScience Database. http://dx.doi.org/10.5524/100198 RIS BibTeX Text

The scabies mite, Sarcoptes scabiei, is a parasitic arachnid and cause of the infectious skin disease scabies in humans or mange in many animal species. We sequenced the genome of two samples of S. scabiei var. hominis obtained from unrelated patients with crusted scabies located in different parts of northern Australia using the Illumina HiSeq. We also sequenced samples of S. scabiei var. suis from a pig model. Due to the small size of scabies mite, these data are derived from pools of thousands of mites and are metagenomic, including host and microbiome DNA. We performed cleaning and de novo assembly and present Sarcoptes scabiei var. hominis and var. suis draft reference genomes. We have constructed a preliminary annotation of this reference comprising 13,226 putative coding sequences based on sequence similarity to known proteins.

Contact Submitter

Related manuscripts:

doi:10.1186/s13742-016-0129-2

Protocols.io:

https://www.protocols.io/widgets/protocol/Draft-genome-assembly-using-parasitic-mite-populat-exwbfpe

Accessions (data included in GigaDB):

BioProject: PRJEB12428

Accessions (data not in GigaDB):

ENA: LN874268
ENA: LN874269
ENA: LN874270

Genomic

http://gigadb.org/images/data/cropped/100198.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Sarcoptes scabiei var. hominis patient A52283  Sarcoptes scabiei Alternative accession-SRA_sample:ERS1037125
Alternative accession-biosample:SAMEA3729976
Infra_specific_name:hominis
...
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Sarcoptes scabiei var. hominis patient B52283  Sarcoptes scabiei Alternative accession-SRA_sample:ERS1037126
Alternative accession-biosample:SAMEA3729977
Infra_specific_name:hominis
...
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Sarcoptes scabiei var suis pig unwashed52283  Sarcoptes scabiei Alternative accession-SRA_sample:ERS1037205
Alternative accession-biosample:SAMEA3730056
Infra_specific_name:suis
...
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Sarcoptes scabiei var suis pig washed 152283  Sarcoptes scabiei Alternative accession-SRA_sample:ERS1037206
Alternative accession-biosample:SAMEA3730057
Infra_specific_name:suis
...
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Sarcoptes scabiei var suis pig washed 252283  Sarcoptes scabiei Alternative accession-SRA_sample:ERS1037207
Alternative accession-biosample:SAMEA3730058
Infra_specific_name:suis
...
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Sarcoptes scabiei var suis pig washed 352283  Sarcoptes scabiei Alternative accession-SRA_sample:ERS1037208
Alternative accession-biosample:SAMEA3730059
Infra_specific_name:suis
...
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Displaying 1-6 of 6 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
Sarcoptes scabiei var. hominis patient AAssemblyFASTA55.03 MB2016-04-20
AssemblyFASTA52.01 MB2016-04-20
AssemblyFASTA61.17 MB2016-04-20
AssemblyFASTA46.13 MB2016-04-20
AssemblyFASTA50.7 MB2016-04-20
AssemblyFASTA51.82 MB2016-04-20
Sarcoptes scabiei var suis pig unwashedGenome assemblyFASTA55.33 MB2016-04-20
Sarcoptes scabiei var suis pig washed 1Genome assemblyFASTA69.61 MB2016-04-20
Sarcoptes scabiei var suis pig washed 2Genome assemblyFASTA63.42 MB2016-04-20
Sarcoptes scabiei var suis pig washed 3Genome assemblyFASTA55.03 MB2016-04-20
Displaying 1-10 of 14 File(s).

History:

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